Difference between revisions of "SNeP"

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[[Category:Software]][[Category:Biolgye]][[Category:Phylogenics]]
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[[Category:Software]][[Category:Biology]][[Category:Phylogenetics]]
 
{|<!--CONFIGURATION: REQUIRED-->
 
{|<!--CONFIGURATION: REQUIRED-->
 
|{{#vardefine:app|snep}}
 
|{{#vardefine:app|snep}}
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{{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}}
 
{{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}}
  
SNeP is a piece of software written in C++ that performs historical Effective Population Size (Ne) trajectories estimation through Linkage Disequilibrium (LD). Calculations are based on genome-wide genotype data
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SNeP is a piece of software written in C++ that performs historical Effective Population Size (Ne) trajectories estimation through Linkage Disequilibrium (LD). Calculations are based on genome-wide genotype data.
  
 
<!--Modules-->
 
<!--Modules-->
==Required Modules==
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==Environment Modules==
 
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Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application.
===Serial===
 
* {{#var:app}}
 
<!--
 
===Parallel (OpenMP)===
 
* intel
 
* {{#var:app}}
 
===Parallel (MPI)===
 
* intel
 
* openmpi
 
* {{#var:app}}
 
-->
 
 
==System Variables==
 
==System Variables==
* HPC_{{#uppercase:{{#var:app}}}}_DIR - installation directory
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* HPC_{{uc:{{#var:app}}}}_DIR - installation directory
 
<!--Configuration-->
 
<!--Configuration-->
 
{{#if: {{#var: conf}}|==Configuration==
 
{{#if: {{#var: conf}}|==Configuration==
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If you publish research that uses {{#var:app}} you have to cite it as follows:
 
If you publish research that uses {{#var:app}} you have to cite it as follows:
  
[http://journal.frontiersin.org/article/10.3389/fgene.2015.00109/abstract Barbato M, Orozco-terWengel P, Tapio M and Bruford MW (2015).
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[http://journal.frontiersin.org/article/10.3389/fgene.2015.00109/abstract Barbato M, Orozco-terWengel P, Tapio M and Bruford MW (2015). Front. Genet. 6:109. doi: 10.3389/fgene.2015.00109]
SNeP: a tool to estimate trends in recent effective population size trajectories using genome-wide SNP data.
 
Front. Genet. 6:109. doi: 10.3389/fgene.2015.00109]
 
  
 
|}}
 
|}}

Latest revision as of 16:23, 10 June 2022

Description

snep website  

SNeP is a piece of software written in C++ that performs historical Effective Population Size (Ne) trajectories estimation through Linkage Disequilibrium (LD). Calculations are based on genome-wide genotype data.

Environment Modules

Run module spider snep to find out what environment modules are available for this application.

System Variables

  • HPC_SNEP_DIR - installation directory




Citation

If you publish research that uses snep you have to cite it as follows:

Barbato M, Orozco-terWengel P, Tapio M and Bruford MW (2015). Front. Genet. 6:109. doi: 10.3389/fgene.2015.00109